AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040996


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040996 MtrunA17_Chr8g0334531 96.444 450 14 1 1 450 13 460 0.0 894
MsaG040996 MtrunA17_Chr7g0245041 71.298 439 108 5 17 450 14 439 0.0 612
MsaG040996 MtrunA17_Chr5g0422461 40.584 377 180 8 94 462 107 447 3.44e-84 270
MsaG040996 MtrunA17_Chr7g0245091 87.234 47 6 0 295 341 1 47 5.25e-22 89.7
MsaG040996 MtrunA17_Chr7g0245081 74.545 55 14 0 396 450 2 56 1.66e-20 88.6
MsaG040996 MtrunA17_Chr4g0038501 26.238 202 94 6 141 339 20 169 6.96e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040996 AT5G01920.1 67.325 456 131 9 1 450 1 444 0.0 565
MsaG040996 AT5G01920.2 67.325 456 131 9 1 450 1 444 0.0 565
MsaG040996 AT1G68830.1 42.647 340 159 8 103 440 101 406 2.94e-75 246
MsaG040996 AT3G07980.1 26.238 202 94 5 141 339 20 169 4.08e-11 66.2
MsaG040996 AT3G07980.2 26.238 202 94 5 141 339 20 169 4.25e-11 65.9

Find 114 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGACTTGGTGTTTCTTC+TGG 0.130923 8:+367182 None:intergenic
CAGATTAAACTCATTGATTT+TGG 0.180146 8:-367296 MsaT040996.1:CDS
CAGATTCACTATCAAGAATT+TGG 0.194374 8:+366849 None:intergenic
TCATTTGGTGTTGTTTATTC+TGG 0.207852 8:-368584 MsaT040996.1:CDS
AATAACTTTATCCTTAGTTT+TGG 0.242510 8:+368487 None:intergenic
ATTCAAGGGGCTGAAGAATT+TGG 0.244608 8:-367866 MsaT040996.1:CDS
GCAAGACCAGGTGTTCTTAT+TGG 0.255792 8:-368719 MsaT040996.1:CDS
TCTGGGAGTACATAGAGTTC+TGG 0.259567 8:+367200 None:intergenic
AGGAAGTCAGCACATGTTTC+AGG 0.264333 8:+367800 None:intergenic
CGTTCCTGACCGCACCCTTT+TGG 0.280827 8:-367240 MsaT040996.1:CDS
GAGGACTTGGTGTTTCTTCT+GGG 0.290835 8:+367183 None:intergenic
TGATCTGTTTGATACTTATT+CGG 0.294442 8:-367008 MsaT040996.1:CDS
TTGAGGAATGGTTCAATTAC+CGG 0.308751 8:-367838 MsaT040996.1:CDS
AACTTAGAATCTGTCATGTT+TGG 0.314194 8:-367473 MsaT040996.1:CDS
AAGGTGGAAAATGGCTTGTT+TGG 0.317886 8:-367736 MsaT040996.1:CDS
TCTTAAGAGAAGTAATTATC+TGG 0.321848 8:+367387 None:intergenic
TGTTGTTTATTCTGGTGTTT+TGG 0.331655 8:-368576 MsaT040996.1:CDS
AGTTCACAAAAGGTGGAAAA+TGG 0.341601 8:-367745 MsaT040996.1:CDS
GGATAAAGTTATTCTCAAAA+AGG 0.346106 8:-368477 MsaT040996.1:intron
CAACTTAGTGGTCACCAAAC+AGG 0.353532 8:-367321 MsaT040996.1:CDS
CAAATTCTTGATAGTGAATC+TGG 0.355583 8:-366848 MsaT040996.1:intron
GGGTTCCAACCTTGTTGCCT+TGG 0.384780 8:+368508 None:intergenic
CTTAAGAAAATTCATGATAC+AGG 0.385572 8:-367371 MsaT040996.1:CDS
CTGGGAGTACATAGAGTTCT+GGG 0.385893 8:+367201 None:intergenic
GTTGCGCTCTTTCATGTAAT+CGG 0.387894 8:+367505 None:intergenic
CAAAGCAGCAGGAGACCTTA+AGG 0.395863 8:+366952 None:intergenic
CTGTTTGATACTTATTCGGC+TGG 0.396996 8:-367004 MsaT040996.1:CDS
CAGGTTAAGGTTGGAATTCA+AGG 0.397973 8:-367881 MsaT040996.1:CDS
AGTGGGTGAGGGTGTTGTCT+AGG 0.411421 8:+366547 None:intergenic
ATTCCTTCTTTGCTTCGATC+AGG 0.411992 8:-368824 MsaT040996.1:CDS
TGAAGAATTTGGTGAATTTG+AGG 0.416266 8:-367855 MsaT040996.1:CDS
TAATTTCACCAATGGTTTGT+TGG 0.417180 8:-368864 MsaT040996.1:CDS
TTTCTTGTTGGAGATAAAAT+CGG 0.418502 8:-368614 MsaT040996.1:CDS
GGTGAAAAGAACGCAGCAAT+TGG 0.430107 8:+367152 None:intergenic
AAAATCGGTGAAGGGTCATT+TGG 0.434082 8:-368599 MsaT040996.1:CDS
TTAAAATTCTTCAAAGCAGC+AGG 0.436042 8:+366941 None:intergenic
TGCATTACACTTTGTAGTGT+TGG 0.436136 8:+368898 None:intergenic
AGTGCTCTTGCTAGTGGGTG+AGG 0.437274 8:+366535 None:intergenic
CAAGTTGAAGAGGAGCAAAA+AGG 0.442438 8:+368681 None:intergenic
AAATGGCAATACCAACCTTA+AGG 0.442773 8:-366967 MsaT040996.1:CDS
CTATCAAGAATTTGGAGGTC+GGG 0.446971 8:+366857 None:intergenic
AATGGTTTGTTGGATGTTGG+TGG 0.459164 8:-368854 MsaT040996.1:CDS
GAATAAGTATCAAACAGATC+AGG 0.461033 8:+367010 None:intergenic
ACCAATGGTTTGTTGGATGT+TGG 0.465781 8:-368857 MsaT040996.1:CDS
AAATAAACCTGCCATAAGAT+TGG 0.467031 8:+367131 None:intergenic
ATGGTTTGTTGGATGTTGGT+GGG 0.467597 8:-368853 MsaT040996.1:CDS
TTGGTGCAGCAACAGACCTT+CGG 0.468641 8:-367277 MsaT040996.1:CDS
TTGAATATGCAGGTTAAGGT+TGG 0.469673 8:-367890 MsaT040996.1:intron
GAAACATGTGCTGACTTCCT+TGG 0.472511 8:-367797 MsaT040996.1:CDS
AATTATCAGACATGCAAAGA+TGG 0.476231 8:-368784 MsaT040996.1:CDS
ATTGGCGCTGGTGGAGGACT+TGG 0.476970 8:+367170 None:intergenic
TATAAAGCCAGCCAACTTAG+TGG 0.477446 8:-367333 MsaT040996.1:CDS
GCAGCAATTGGCGCTGGTGG+AGG 0.482408 8:+367164 None:intergenic
GTGGGTGAGGGTGTTGTCTA+GGG 0.484705 8:+366548 None:intergenic
TTGGTGACCACTAAGTTGGC+TGG 0.491398 8:+367326 None:intergenic
GAGTTTAATCTGTCCCTGTT+TGG 0.495629 8:+367307 None:intergenic
ATGACAGATTCTAAGTTTGA+AGG 0.504582 8:+367479 None:intergenic
TGGGATTGTACTACTTCAAA+TGG 0.504661 8:-366984 MsaT040996.1:CDS
AACGCAGCAATTGGCGCTGG+TGG 0.504872 8:+367161 None:intergenic
TTTGATAATAATTTCACCAA+TGG 0.508196 8:-368872 MsaT040996.1:CDS
GGCAATAGTCGGGATCCAAA+AGG 0.508880 8:+367225 None:intergenic
ATCTCCAACAAGAAAATCAC+CGG 0.512048 8:+368622 None:intergenic
GGATCCAAAAGGGTGCGGTC+AGG 0.512727 8:+367236 None:intergenic
ACAAACTCACAGTTCACAAA+AGG 0.512881 8:-367755 MsaT040996.1:CDS
ATAGTTGTAACAGTTGGAGT+TGG 0.517434 8:+369016 None:intergenic
TGGTTTGTTGGATGTTGGTG+GGG 0.524731 8:-368852 MsaT040996.1:CDS
TGACAGATTCTAAGTTTGAA+GGG 0.525444 8:+367480 None:intergenic
ATGGCTTGTTTGGAAATTTG+AGG 0.527072 8:-367726 MsaT040996.1:intron
GCAATAGTCGGGATCCAAAA+GGG 0.536861 8:+367226 None:intergenic
AAGGTTGGAACCCAAAACTA+AGG 0.537050 8:-368498 MsaT040996.1:CDS
AACTCACAGTTCACAAAAGG+TGG 0.542299 8:-367752 MsaT040996.1:CDS
GGAGGGAGTATACTCGCCTC+AGG 0.542612 8:-366880 MsaT040996.1:CDS
AAAATCCAAGGCAACAAGGT+TGG 0.543197 8:-368513 MsaT040996.1:CDS
TATCAGCCACAAAACTTCCA+AGG 0.543904 8:+367780 None:intergenic
GTGCTCTTGCTAGTGGGTGA+GGG 0.544504 8:+366536 None:intergenic
AGTCCTGATCGAAGCAAAGA+AGG 0.545231 8:+368821 None:intergenic
TTAAGTATAGTTGTAACAGT+TGG 0.548626 8:+369010 None:intergenic
ATTATCAGACATGCAAAGAT+GGG 0.550083 8:-368783 MsaT040996.1:CDS
GATGTTGAGGTGGACAAGAG+AGG 0.551839 8:-368536 MsaT040996.1:CDS
GGAAGGAGAAATTTGAAGAC+CGG 0.552012 8:-368641 MsaT040996.1:CDS
CTGTTTGGTGACCACTAAGT+TGG 0.553834 8:+367322 None:intergenic
ATTCACTATCAAGAATTTGG+AGG 0.555926 8:+366852 None:intergenic
AGGTTAAGGTTGGAATTCAA+GGG 0.556860 8:-367880 MsaT040996.1:CDS
ACCAACATCCAACAAACCAT+TGG 0.568449 8:+368856 None:intergenic
TTAGCAAAACCAAGTTGAAG+AGG 0.569301 8:+368671 None:intergenic
CGTAATTCTTTCCGATCCGA+AGG 0.571846 8:+367261 None:intergenic
CAGGTGCTGCTCTAGATAGC+CGG 0.573871 8:+367819 None:intergenic
AATTTGGTGAATTTGAGGAA+TGG 0.573912 8:-367850 MsaT040996.1:CDS
AACTTAGTGGTCACCAAACA+GGG 0.574734 8:-367320 MsaT040996.1:CDS
ATGTTTGGACGTGTGTTGCA+AGG 0.579309 8:-367458 MsaT040996.1:CDS
TGTTTGATACTTATTCGGCT+GGG 0.581574 8:-367003 MsaT040996.1:CDS
GAATTTGGAGGTCGGGCCTG+AGG 0.582291 8:+366864 None:intergenic
TGGGAGTACATAGAGTTCTG+GGG 0.582528 8:+367202 None:intergenic
AATAAGTATCAAACAGATCA+GGG 0.584272 8:+367011 None:intergenic
GTTGGAGATAAAATCGGTGA+AGG 0.586301 8:-368608 MsaT040996.1:CDS
CACCAAGTGCTCTTGCTAGT+GGG 0.586866 8:+366530 None:intergenic
AAGAACGCAGCAATTGGCGC+TGG 0.598908 8:+367158 None:intergenic
GGGAGTACATAGAGTTCTGG+GGG 0.603048 8:+367203 None:intergenic
GCAGCAGGAGACCTTAAGGT+TGG 0.603473 8:+366956 None:intergenic
ACTATCAAGAATTTGGAGGT+CGG 0.607440 8:+366856 None:intergenic
AAAGAATGTGGTGGATGTTG+AGG 0.609920 8:-368549 MsaT040996.1:CDS
TTGTAGTGTTGGTATTGACA+CGG 0.625771 8:+368909 None:intergenic
ATGGCACCAATAAGAACACC+TGG 0.630764 8:+368713 None:intergenic
GGTTAAGGTTGGAATTCAAG+GGG 0.633298 8:-367879 MsaT040996.1:CDS
AGTCGGGATCCAAAAGGGTG+CGG 0.634552 8:+367231 None:intergenic
ATCGAAGCAAAGAAGGAATG+TGG 0.635614 8:+368828 None:intergenic
GAGGAAAATCCAAGGCAACA+AGG 0.637928 8:-368517 MsaT040996.1:CDS
TTGGAGATAAAATCGGTGAA+GGG 0.644807 8:-368607 MsaT040996.1:CDS
GAATGTGGTGGATGTTGAGG+TGG 0.645659 8:-368546 MsaT040996.1:CDS
GGACAAGAGAGGAAAATCCA+AGG 0.649587 8:-368525 MsaT040996.1:CDS
TTTGGTCTCAAAGAATGTGG+TGG 0.650196 8:-368558 MsaT040996.1:CDS
ATATACTTAACTGCAAGACC+AGG 0.651960 8:-368731 MsaT040996.1:CDS
GCAGCAACAGACCTTCGGAT+CGG 0.658142 8:-367272 MsaT040996.1:CDS
GGAGTACATAGAGTTCTGGG+GGG 0.810828 8:+367204 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 366545 369056 366545 ID=MsaG040996
Chr8 mRNA 366545 369056 366545 ID=MsaT040996.1;Parent=MsaG040996
Chr8 exon 366545 366582 366545 ID=MsaT040996.1.exon5;Parent=MsaT040996.1
Chr8 CDS 366545 366582 366545 ID=cds.MsaT040996.1;Parent=MsaT040996.1
Chr8 exon 366849 367041 366849 ID=MsaT040996.1.exon4;Parent=MsaT040996.1
Chr8 CDS 366849 367041 366849 ID=cds.MsaT040996.1;Parent=MsaT040996.1
Chr8 exon 367139 367543 367139 ID=MsaT040996.1.exon3;Parent=MsaT040996.1
Chr8 CDS 367139 367543 367139 ID=cds.MsaT040996.1;Parent=MsaT040996.1
Chr8 exon 367727 367900 367727 ID=MsaT040996.1.exon2;Parent=MsaT040996.1
Chr8 CDS 367727 367900 367727 ID=cds.MsaT040996.1;Parent=MsaT040996.1
Chr8 exon 368478 369056 368478 ID=MsaT040996.1.exon1;Parent=MsaT040996.1
Chr8 CDS 368478 369056 368478 ID=cds.MsaT040996.1;Parent=MsaT040996.1
Gene Sequence

>MsaT040996.1

ATGGTTTCTTTGCTTCATCCAACTCCAACTGTTACAACTATACTTAAGCAGCGAACATCAACAATCTGTTTCTTCTGTCCCTTAAAACATACAAATGTTTCTTTCTTAACTAACACAAACACAAACCGTGTCAATACCAACACTACAAAGTGTAATGCATTTTTTGATAATAATTTCACCAATGGTTTGTTGGATGTTGGTGGGGACCACATTCCTTCTTTGCTTCGATCAGGACTACTTCAGTTTCAAGAATTATCAGACATGCAAAGATGGGAGTTTCTTCTTTTTGGTGGACTCATATGGATATACTTAACTGCAAGACCAGGTGTTCTTATTGGTGCCATTGATGCTTACCTTTTTGCTCCTCTTCAACTTGGTTTTGCTAATTTATCTGGAAGGAGAAATTTGAAGACCGGTGATTTTCTTGTTGGAGATAAAATCGGTGAAGGGTCATTTGGTGTTGTTTATTCTGGTGTTTTGGTCTCAAAGAATGTGGTGGATGTTGAGGTGGACAAGAGAGGAAAATCCAAGGCAACAAGGTTGGAACCCAAAACTAAGGATAAAGTTATTCTCAAAAAGGTTAAGGTTGGAATTCAAGGGGCTGAAGAATTTGGTGAATTTGAGGAATGGTTCAATTACCGGCTATCTAGAGCAGCACCTGAAACATGTGCTGACTTCCTTGGAAGTTTTGTGGCTGATAAAACAAACTCACAGTTCACAAAAGGTGGAAAATGGCTTGTTTGGAAATTTGAGGGAGATCGTACTCTTGCCGATTACATGAAAGAGCGCAACTTCCCTTCAAACTTAGAATCTGTCATGTTTGGACGTGTGTTGCAAGGCGTAGATTCTTCTAGACGAAATGCATTGATCATCAAGCAAATCATGCGCCAGATAATTACTTCTCTTAAGAAAATTCATGATACAGGCATTGTTCACAGAGATATAAAGCCAGCCAACTTAGTGGTCACCAAACAGGGACAGATTAAACTCATTGATTTTGGTGCAGCAACAGACCTTCGGATCGGAAAGAATTACGTTCCTGACCGCACCCTTTTGGATCCCGACTATTGCCCCCCAGAACTCTATGTACTCCCAGAAGAAACACCAAGTCCTCCACCAGCGCCAATTGCTGCGTTCTTTTCACCAATCTTATGGCAGTTAAACAGCCCTGATCTGTTTGATACTTATTCGGCTGGGATTGTACTACTTCAAATGGCAATACCAACCTTAAGGTCTCCTGCTGCTTTGAAGAATTTTAATTTGGAAATAAAAACCTGTGGATATGATTTGAAAAAATGGAGGGAGTATACTCGCCTCAGGCCCGACCTCCAAATTCTTGATAGTGAATCTGATTTATCTGATTCCCTAGACAACACCCTCACCCACTAG

Protein sequence

>MsaT040996.1

MVSLLHPTPTVTTILKQRTSTICFFCPLKHTNVSFLTNTNTNRVNTNTTKCNAFFDNNFTNGLLDVGGDHIPSLLRSGLLQFQELSDMQRWEFLLFGGLIWIYLTARPGVLIGAIDAYLFAPLQLGFANLSGRRNLKTGDFLVGDKIGEGSFGVVYSGVLVSKNVVDVEVDKRGKSKATRLEPKTKDKVILKKVKVGIQGAEEFGEFEEWFNYRLSRAAPETCADFLGSFVADKTNSQFTKGGKWLVWKFEGDRTLADYMKERNFPSNLESVMFGRVLQGVDSSRRNALIIKQIMRQIITSLKKIHDTGIVHRDIKPANLVVTKQGQIKLIDFGAATDLRIGKNYVPDRTLLDPDYCPPELYVLPEETPSPPPAPIAAFFSPILWQLNSPDLFDTYSAGIVLLQMAIPTLRSPAALKNFNLEIKTCGYDLKKWREYTRLRPDLQILDSESDLSDSLDNTLTH*